RetrogeneDB ID: retro_ogar_915

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873530.1:32830729..32831196(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: IL6
• Ensembl ID: ENSOGAG00000004177
• Aliases: None
• Description: interleukin 6 (interferon, beta 2) [Source:HGNC Symbol;Acc:6018]

Sequence

>retro_ogar_915
CTCTCCACAGGCACCTTCAGCGTGGTTGCCTTCTCACAGGGGCTGCTCCTGGTGATGGCTACTGTGTTCCCCACTTCTGA
ACCCCTAGAAAATCTGGAAGAAGATGCCACCCCAAAAGTCATTGTCACTCACTACTCCAGAACAAACCATAGGACTCATC
AATCACATCATCACGAAAATCGGTTCCCTGAATCAGAAACGTGCAGTGAGGGTATCCAGTGTGGAGATAGCAAGCGCATC
CTGGTAGATAACAGACTTCACCTTCGCAGGTTGGAAGATGGAGATGGATGCTTCGAGTCTGGATTCGACAGGAGGTGTGC
CTGACAAGAATCAGCTATGGTCTTATGGGGTAAGAGAAATATCTGGAGTACATTGAGGGCAAGTTTGAGAGTGATTTGAA
TGAAGCTATAACTTTGGCTCTGGGCACAAAATACCTGATCCAGGTCCTGAAGTAAAAGATGAAGAAT

Alignment

ORF - retro_ogar_915 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60. %
• Parental protein coverage: 74.41 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LRTGAFSAVAFSLGLLLATATAF-PTSGPLEVLEKDATPAKPLSLSTPEQTEGLITHIIMEINDLNGKM-
          L.TG.FS.VAFS.GLLL..AT.F.P...P.....K...P.K.LSL.TPEQT.GLI.HII..I..LN.K..
Retrocopy LSTGTFSVVAFSQGLLLVMATVF>PLLNP*KIWKK-MPPQKSLSLTTPEQTIGLINHIITKIGSLNQKR<

Parental  CSKGIKCEGDSHVMENNKLHLPRLEDDDGCFETGFNK-EECLTRITYGLSGYEKYLAYIEGKFEGDINEA
          CS.GI.C.........N.LHL.RLED.DGCFE.GF...E.CLTRI.YGL.G.EKYL.YIEGKFE.D.NEA
Retrocopy CSEGIQCGDSKRILVDNRLHLRRLEDGDGCFESGFDR<EVCLTRISYGLMG*EKYLEYIEGKFESDLNEA

Parental  VALDLGTKHLIDVLKQKLSN
          ..L.LGTK.LI.VLK.K..N
Retrocopy ITLALGTKYLIQVLK*KMKN

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_915 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000001221	1 retrocopy	retro_etel_1962,
Otolemur garnettii	ENSOGAG00000004177	1 retrocopy	retro_ogar_915 ,